Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Rcor2

Cell type

Cell type Class
Neural
Cell type
Cortical midline
NA
NA

Attributes by original data submitter

Sample

source_name
Cortical Midline
strain
C57BL/6
age
Embryonic day 14.5
genotype
wild type
chip antibody
ProteinTech (ca# 23969-1-AP)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Midline corticies were dissected in cold PBS. For ChIP-seq samples, tissue was fixed in ethylene glycolbis (succinimidyl succinate) (EGS) then Formaldehyde; quenched in Glycine, and sonicated to 500bp fragments. Sonicated was immunoprecipitated with appropriate antibody overnight and pulled down with magnetic Dynabeads (Invitrogen). Immunoprecipitated DNA was reverse-crosslinked and purified. NEBNEXT Ultra II DNA Library Prep kit (New England Biolabs) was used to construct multiplex libraries using 5ng of DNA. For RNA-seq RNA was isolated using the RNeasy Plus Mini Kit (Qiagen). RNA libraries were constructed using the Illumina TruSeq RNA Sample Prep Kit with 20ng RNA per sample. Libraries for ChIP-seq and RNA-seq were prepared according to standard Illumina protocols

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
39765347
Reads aligned (%)
92.5
Duplicates removed (%)
12.2
Number of peaks
680 (qval < 1E-05)

mm9

Number of total reads
39765347
Reads aligned (%)
92.3
Duplicates removed (%)
12.2
Number of peaks
722 (qval < 1E-05)

Base call quality data from DBCLS SRA